Long noncoding RNAs in T lymphocytes

被引:28
作者
Aune, Thomas M. [1 ]
Crooke, Phillip S., III [2 ]
Spurlock, Charles F., III [1 ]
机构
[1] Vanderbilt Univ, Dept Med, Nashville, TN 37232 USA
[2] Vanderbilt Univ, Dept Math, Nashville, TN 37232 USA
基金
美国国家科学基金会; 美国国家卫生研究院;
关键词
epigenetics; lncRNA; adaptive immunity; DIFFERENTIAL EXPRESSION ANALYSIS; CELL DIFFERENTIATION; TRANSCRIPTION FACTOR; INTERFERON-GAMMA; GENE-EXPRESSION; SEQUENCING DATA; HUMAN GENOME; ENCODE; IFNG; REVEALS;
D O I
10.1189/jlb.1RI0815-389R
中图分类号
Q2 [细胞生物学];
学科分类号
071009 ; 090102 ;
摘要
Long noncoding RNAs are recently discovered regulatory RNA molecules that do not code for proteins but influence a vast array of biologic processes. In vertebrates, the number of long noncoding RNA genes is thought to greatly exceed the number of protein-coding genes. It is also thought that long noncoding RNAs drive the biologic complexity observed in vertebrates compared with that in invertebrates. Evidence of this complexity has been found in the T-lymphocyte compartment of the adaptive immune system. In the present review, we describe our current level of understanding of the expression of specific long or large intergenic or intervening long noncoding RNAs during T-lymphocyte development in the thymus and differentiation in the periphery and highlight the mechanisms of action that specific long noncoding RNAs employ to regulate T-lymphocyte function, both in vitro and in vivo.
引用
收藏
页码:31 / 44
页数:14
相关论文
共 112 条
[1]   Global discovery of erythroid long noncoding RNAs reveals novel regulators of red cell maturation [J].
Alvarez-Dominguez, Juan R. ;
Hu, Wenqian ;
Yuan, Bingbing ;
Shi, Jiahai ;
Park, Staphany S. ;
Gromatzky, Austin A. ;
van Oudenaarden, Alexander ;
Lodish, Harvey F. .
BLOOD, 2014, 123 (04) :570-581
[2]   The eukaryotic genome as an RNA machine [J].
Amaral, Paulo P. ;
Dinger, Marcel E. ;
Mercer, Tim R. ;
Mattick, John S. .
SCIENCE, 2008, 319 (5871) :1787-1789
[3]   Count-based differential expression analysis of RNA sequencing data using R and Bioconductor [J].
Anders, Simon ;
McCarthy, Davis J. ;
Chen, Yunshun ;
Okoniewski, Michal ;
Smyth, Gordon K. ;
Huber, Wolfgang ;
Robinson, Mark D. .
NATURE PROTOCOLS, 2013, 8 (09) :1765-1786
[4]   Long non-coding RNAs in innate and adaptive immunity [J].
Aune, Thomas M. ;
Spurlock, Charles F., III .
VIRUS RESEARCH, 2016, 212 :146-160
[5]   Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project [J].
Birney, Ewan ;
Stamatoyannopoulos, John A. ;
Dutta, Anindya ;
Guigo, Roderic ;
Gingeras, Thomas R. ;
Margulies, Elliott H. ;
Weng, Zhiping ;
Snyder, Michael ;
Dermitzakis, Emmanouil T. ;
Stamatoyannopoulos, John A. ;
Thurman, Robert E. ;
Kuehn, Michael S. ;
Taylor, Christopher M. ;
Neph, Shane ;
Koch, Christoph M. ;
Asthana, Saurabh ;
Malhotra, Ankit ;
Adzhubei, Ivan ;
Greenbaum, Jason A. ;
Andrews, Robert M. ;
Flicek, Paul ;
Boyle, Patrick J. ;
Cao, Hua ;
Carter, Nigel P. ;
Clelland, Gayle K. ;
Davis, Sean ;
Day, Nathan ;
Dhami, Pawandeep ;
Dillon, Shane C. ;
Dorschner, Michael O. ;
Fiegler, Heike ;
Giresi, Paul G. ;
Goldy, Jeff ;
Hawrylycz, Michael ;
Haydock, Andrew ;
Humbert, Richard ;
James, Keith D. ;
Johnson, Brett E. ;
Johnson, Ericka M. ;
Frum, Tristan T. ;
Rosenzweig, Elizabeth R. ;
Karnani, Neerja ;
Lee, Kirsten ;
Lefebvre, Gregory C. ;
Navas, Patrick A. ;
Neri, Fidencio ;
Parker, Stephen C. J. ;
Sabo, Peter J. ;
Sandstrom, Richard ;
Shafer, Anthony .
NATURE, 2007, 447 (7146) :799-816
[6]   Thymus development and function [J].
Boehm, Thomas .
CURRENT OPINION IN IMMUNOLOGY, 2008, 20 (02) :178-184
[7]   Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses [J].
Cabili, Moran N. ;
Trapnell, Cole ;
Goff, Loyal ;
Koziol, Magdalena ;
Tazon-Vega, Barbara ;
Regev, Aviv ;
Rinn, John L. .
GENES & DEVELOPMENT, 2011, 25 (18) :1915-1927
[8]   Dynamic changes in histone-methylation 'marks' across the locus encoding interferon-γ during the differentiation of T helper type 2 cells [J].
Chang, Shaojing ;
Aune, Thomas M. .
NATURE IMMUNOLOGY, 2007, 8 (07) :723-731
[9]   Differential expression analysis of RNA sequencing data by incorporating non-exonic mapped reads [J].
Chen, Hung-I Harry ;
Liu, Yuanhang ;
Zou, Yi ;
Lai, Zhao ;
Sarkar, Devanand ;
Huang, Yufei ;
Chen, Yidong .
BMC GENOMICS, 2015, 16
[10]   Genomic Maps of Long Noncoding RNA Occupancy Reveal Principles of RNA-Chromatin Interactions [J].
Chu, Ci ;
Qu, Kun ;
Zhong, Franklin L. ;
Artandi, Steven E. ;
Chang, Howard Y. .
MOLECULAR CELL, 2011, 44 (04) :667-678